Unfortunately, this is a classic no-win situation. If you protest about instructors being incompetent, you may come across as someone too eager to assign blame for mistakes to someone else. If you say nothing, then your record may be dismissed out of hand (given how important algebra is in the undergraduate math curriculum). You also don't want to admit that you're skipping class.
I think your best bet may be to take your chances with the poor grade in algebra, but then follow the advice suggested for other people with weak transcriptssuggested for other people with weak transcripts.
